Matthew Schechter of anvi'o
Bio
Microbiologist interested in combining comparative genomics and environmental metagenomics to identify genetic determinants of fitness in microbial populations in the human gut and ocean microbiome.
Affiliations
currentGraduate Student, Committee on Microbiology at the University of Chicago
Contact info or affiliations needs an update? Edit these files.
Program contributions
anvi-analyze-synteny anvi-export-locus anvi-migrate anvi-run-cazymes anvi-run-hmms anvi-run-workflow anvi-setup-cazymes anvi-script-filter-hmm-hits-table
Resource contributions
Tutorials and exercises
Kinds of write-ups that typically use mock or simple datasets to describe basic concepts and how to accomplish common tasks in anvi'o often with hands-on experience.
Materials from a 2022 workshop on metagenomics in anvi'o, including read recruitment and metabolism estimation.
Materials and a tutorial from the 2023 iteration of our metagenomics workshop.
Technical write-ups
Solutions or discussions regarding matters that are typically more technical than scientific.
A tutorial on how to use anvi-export-locus to target genomic regions of interest across genomes and/or metagenomic assemblies, and report sequences and/or anvi’o contigs databases for cut loci for downstream analyses.
A workflow to demonstrate how to import AGNOSTOS gene categories into anvi'o databases
Articles, workflows, opinions
Key insights into specific topics and can be useful to more advanced users and 'omics enthusiasts in general.
An incomplete history of ideas that shaped integrated genomics and metagenomics to explore microbial fitness in habitats such as the human gut and the oceans.